README.md

Human skeletal muscle aging atlas

code to reproduce analyses in the manuscript

Raw data

Raw data files can be obtained from the ArrayExpress under accesion E-MTAB-13874 and processed anndata objects are available from muscleageingcellatlas.org.

Contents

1. Annotation

• jupyter notebooks for QC, integration and annotation of coarse and fine-grained cell types in the skeltal muscle.

2. DE_analysis

• scripts for running single-cell linear mixed effect model (R-based) to evaluate differential gene expression with age accounting for biological and technical covariates (see Supplementary Note 1.3 in this study for detailed explanation of this implementation).

3. Figures

• jupyter notebooks to run analyses to reproduce main and extended data figures.

Citation

TBA